Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )

Length:

122

Sequences:

609

Seq/Len:

4.99

HH_delta:

0.91 (20Jul13)

GREMLIN Results:
Residue pairs sorted by strength in covariance:Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

i

j

Raw Score

Scaled Score

83_F

115_E

0.47653

3.710

77_K

104_N

0.40399

3.146

42_L

110_A

0.37012

2.882

27_D

86_E

0.34186

2.662

78_L

111_V

0.33462

2.606

28_L

42_L

0.2746

2.138

78_L

85_L

0.26345

2.051

41_T

51_E

0.24221

1.886

68_E

72_R

0.23442

1.825

74_Q

104_N

0.23116

1.800

3_R

97_F

0.22948

1.787

3_R

6_D

0.22481

1.750

72_R

76_S

0.21841

1.701

7_K

11_K

0.21477

1.672

58_P

96_L

0.21389

1.665

29_K

89_E

0.21371

1.664

28_L

110_A

0.20913

1.628

74_Q

103_L

0.20667

1.609

74_Q

77_K

0.20042

1.561

33_K

93_D

0.19453

1.515

39_K

53_T

0.19199

1.495

28_L

85_L

0.1885

1.468

104_N

108_R

0.18238

1.420

27_D

87_N

0.17896

1.393

6_D

118_R

0.17335

1.350

85_L

88_I

0.16831

1.311

23_K

84_E

0.16414

1.278

29_K

91_D

0.1636

1.274

112_E

115_E

0.16249

1.265

2_Y

9_L

0.1618

1.260

30_L

38_L

0.1608

1.252

105_E

109_E

0.15807

1.231

33_K

36_E

0.15572

1.213

64_R

70_R

0.15184

1.182

98_L

102_E

0.1515

1.180

116_E

120_A

0.14851

1.156

109_E

112_E

0.14815

1.154

39_K

51_E

0.14697

1.144

77_K

97_F

0.14616

1.138

29_K

41_T

0.14465

1.126

42_L

111_V

0.14436

1.124

43_S

49_S

0.14178

1.104

102_E

105_E

0.14067

1.095

28_L

40_L

0.13864

1.080

28_L

75_L

0.13567

1.056

4_T

9_L

0.13566

1.056

38_L

54_S

0.13561

1.056

30_L

75_L

0.1349

1.050

23_K

80_N

0.13273

1.033

75_L

110_A

0.13252

1.032

6_D

9_L

0.13244

1.031

60_P

95_G

0.13009

1.013

48_N

118_R

0.12921

1.006

26_V

110_A

0.12852

1.001

31_S

91_D

0.12831

0.999

26_V

114_L

0.12794

0.996

59_E

62_K

0.12688

0.988

3_R

16_S

0.12375

0.964

110_A

118_R

0.12326

0.960

54_S

106_L

0.12325

0.960

112_E

116_E

0.12317

0.959

69_E

72_R

0.12316

0.959

63_K

104_N

0.12295

0.957

13_L

16_S

0.12291

0.957

2_Y

58_P

0.12237

0.953

2_Y

7_K

0.12179

0.948

113_K

117_K

0.1213

0.944

78_L

81_T

0.12085

0.941

40_L

106_L

0.11927

0.929

70_R

103_L

0.11924

0.928

8_K

105_E

0.1167

0.909

34_K

94_E

0.11647

0.907

30_L

71_I

0.11618

0.905

30_L

40_L

0.11615

0.904

34_K

96_L

0.11551

0.899

65_P

95_G

0.11447

0.891

26_V

72_R

0.11404

0.888

79_G

101_S

0.11387

0.887

7_K

58_P

0.11327

0.882

6_D

13_L

0.11317

0.881

90_I

93_D

0.11204

0.872

12_E

94_E

0.11172

0.870

31_S

39_K

0.11128

0.866

42_L

89_E

0.11008

0.857

50_V

106_L

0.10876

0.847

77_K

85_L

0.10866

0.846

40_L

75_L

0.10815

0.842

100_I

104_N

0.10738

0.836

25_P

84_E

0.10619

0.827

10_E

13_L

0.10602

0.826

16_S

21_E

0.10514

0.819

114_L

118_R

0.10409

0.810

28_L

88_I

0.1034

0.805

77_K

107_R

0.10311

0.803

34_K

60_P

0.10308

0.803

36_E

53_T

0.10286

0.801

81_T

111_V

0.10217

0.796

52_V

106_L

0.10208

0.795

115_E

119_L

0.1019

0.793

60_P

86_E

0.10174

0.792

1_V

13_L

0.10153

0.791

11_K

15_K

0.10145

0.790

36_E

113_K

0.10133

0.789

1_V

93_D

0.10123

0.788

70_R

98_L

0.09936

0.774

24_I

118_R

0.09741

0.758

73_K

106_L

0.09729

0.758

97_F

101_S

0.09718

0.757

33_K

37_P

0.09687

0.754

78_L

102_E

0.09627

0.750

72_R

106_L

0.09592

0.747

67_D

115_E

0.09578

0.746

41_T

49_S

0.09551

0.744

30_L

37_P

0.09541

0.743

40_L

50_V

0.09452

0.736

15_K

19_S

0.09446

0.736

58_P

93_D

0.09443

0.735

31_S

41_T

0.09441

0.735

31_S

116_E

0.09409

0.733

67_D

70_R

0.09384

0.731

50_V

113_K

0.09353

0.728

5_S

10_E

0.0935

0.728

29_K

51_E

0.09319

0.726

24_I

110_A

0.09256

0.721

3_R

45_E

0.09252

0.720

74_Q

100_I

0.09215

0.718

69_E

109_E

0.09205

0.717

6_D

23_K

0.09163

0.713

104_N

107_R

0.0914

0.712

99_P

108_R

0.09133

0.711

9_L

54_S

0.09121

0.710

24_I

88_I

0.09115

0.710

25_P

68_E

0.09065

0.706

66_L

98_L

0.09024

0.703

25_P

86_E

0.08997

0.701

88_I

100_I

0.08986

0.700

70_R

101_S

0.08973

0.699

55_E

99_P

0.0892

0.695

11_K

48_N

0.0887

0.691

50_V

114_L

0.08868

0.691

85_L

90_I

0.08865

0.690

35_G

89_E

0.08815

0.686

1_V

4_T

0.0881

0.686

38_L

104_N

0.08787

0.684

2_Y

119_L

0.08765

0.682

60_P

94_E

0.08764

0.682

66_L

88_I

0.08725

0.679

55_E

109_E

0.08721

0.679

4_T

7_K

0.08682

0.676

5_S

80_N

0.08676

0.676

67_D

73_K

0.08675

0.675

60_P

69_E

0.08673

0.675

8_K

12_E

0.08667

0.675

1_V

120_A

0.0864

0.673

66_L

104_N

0.08635

0.672

13_L

82_P

0.08616

0.671

52_V

110_A

0.0858

0.668

65_P

68_E

0.08579

0.668

38_L

78_L

0.08574

0.668

13_L

64_R

0.08513

0.663

26_V

87_N

0.08509

0.663

26_V

89_E

0.08475

0.660

53_T

116_E

0.08403

0.654

37_P

66_L

0.08393

0.654

100_I

107_R

0.08375

0.652

7_K

71_I

0.08333

0.649

47_G

50_V

0.08313

0.647

73_K

105_E

0.083

0.646

26_V

56_I

0.08291

0.646

66_L

70_R

0.0829

0.645

9_L

37_P

0.08279

0.645

63_K

77_K

0.08277

0.644

3_R

13_L

0.08276

0.644

83_F

118_R

0.0826

0.643

Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.

HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits: Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)